scholarly journals Electrical impedance characterization of in vivo porcine tissue using machine learning

2021 ◽  
Vol 12 (1) ◽  
pp. 26-33
Author(s):  
Stephen Chiang ◽  
Matthew Eschbach ◽  
Robert Knapp ◽  
Brian Holden ◽  
Andrew Miesse ◽  
...  
Keyword(s):  
Machine Learning ◽  
Small Bowel ◽  
Electrical Impedance ◽  
Tissue Type ◽  
Support Vector ◽  
Learning Methods ◽  
K Nearest Neighbors ◽  
Porcine Tissue ◽  
Machine Learning Methods

Abstract The incorporation of sensors onto the stapling platform has been investigated to overcome the disconnect in our understanding of tissue handling by surgical staplers. The goal of this study was to explore the feasibility of in vivo porcine tissue differentiation using bioimpedance data and machine learning methods. In vivo electrical impedance measurements were obtained in 7 young domestic pigs, using a logarithmic sweep of 50 points over a frequency range of 100 Hz to 1 MHz. Tissues studied included lung, liver, small bowel, colon, and stomach, which was further segmented into fundus, body, and antrum. The data was then parsed through MATLAB's classification learner to identify the best algorithm for tissue type differentiation. The most effective classification scheme was found to be cubic support vector machines with 86.96% accuracy. When fundus, body and antrum were aggregated together as stomach, the accuracy improved to 88.03%. The combination of stomach, small bowel, and colon together as GI tract improved accuracy to 99.79% using fine k nearest neighbors. The results suggest that bioimpedance data can be effectively used to differentiate tissue types in vivo. This study is one of the first that combines in vivo bioimpedance tissue data across multiple tissue types with machine learning methods.

Quantitative Assessment of Ataxia in Multiple Sclerosis Patients using Spatiotemporal Parameters: A Relief-Based Machine Learning Analysis

2021 ◽  
Author(s):  
Furkan Bilek ◽  
Ferhat Balgetir ◽  
Caner Feyzi Demir ◽  
Gökhan Alkan ◽  
Seda Arslan-Tuncer
Keyword(s):  
Machine Learning ◽  
Multiple Sclerosis ◽  
Sensitivity And Specificity ◽  
Classification Performance ◽  
Support Vector ◽  
Learning Methods ◽  
K Nearest Neighbors ◽  
Machine Learning Methods ◽  
Spatiotemporal Parameters ◽  
Multiple Sclerosis Patients

Abstract Background and Objective Multiple sclerosis (MS) is a chronic, progressive, and autoimmune disease of the central nervous system (CNS) characterized by inflammation, demyelination, and axonal injury. In patients with newly diagnosed MS (ndMS), ataxia can present either as mild or severe and can be difficult to diagnose in the absence of clinical disability. Such difficulties can be eliminated by using decision support systems supported by machine learning methods. The present study aimed to achieve early diagnosis of ataxia in ndMS patients by using machine learning methods with spatiotemporal parameters. Materials and Methods The prospective study included 32 ndMS patients with an Expanded Disability Status Scale (EDSS) score of≤2.0 and 32 healthy volunteers. A total of 14 parameters were elicited by using a Win-Track platform. The ndMS patients were differentiated from healthy individuals using multiple classifiers including Artificial Neural Network (ANN), Support Vector Machine (SVM), the k-nearest neighbors (K-NN) algorithm, and Decision Tree Learning (DTL). To improve the performance of the classification, a Relief-based feature selection algorithm was applied to select the subset that best represented the whole dataset. Performance evaluation was achieved based on several criteria such as Accuracy (ACC), Sensitivity (SN), Specificity (SP), and Precision (PREC). Results ANN had a higher classification performance compared to other classifiers, whereby it provided an accuracy, sensitivity, and specificity of 89, 87.8, 90.3% with the use of all parameters and provided the values of 93.7, 96.6%, and 91.1% with the use of parameters selected by the Relief algorithm, respectively. Significance To our knowledge, this is the first study of its kind in the literature to investigate the diagnosis of ataxia in ndMS patients by using machine learning methods with spatiotemporal parameters. The proposed method, i. e. Relief-based ANN method, successfully diagnosed ataxia by using a lower number of parameters compared to the numbers of parameters reported in clinical studies, thereby reducing the costs and increasing the performance of the diagnosis. The method also provided higher rates of accuracy, sensitivity, and specificity in the diagnosis of ataxia in ndMS patients compared to other methods. Taken together, these findings indicate that the proposed method could be helpful in the diagnosis of ataxia in minimally impaired ndMS patients and could be a pathfinder for future studies.

scholarly journals Supervised machine learning methods in psychology: A practical introduction with annotated R code

2019 ◽  
Author(s):  
Hannes Rosenbusch ◽  
Felix Soldner ◽  
Anthony M Evans ◽  
Marcel Zeelenberg
Keyword(s):  
Machine Learning ◽  
Prediction Models ◽  
Psychological Research ◽  
Supervised Machine Learning ◽  
Support Vector ◽  
Learning Methods ◽  
Comprehensive Overview ◽  
K Nearest Neighbors ◽  
Machine Learning Methods ◽  
Out Of Sample

Machine learning methods for pattern detection and prediction are increasingly prevalent in psychological research. We provide a comprehensive overview of machine learning, its applications, and how to implement models for research. We review fundamental concepts of machine learning, such as prediction accuracy and out-of-sample evaluation, and summarize four standard prediction algorithms: linear regressions, ridge regressions, decision trees, and random forests (plus k-nearest neighbors, Naïve Bayes classifiers, and support vector machines in the supplementary material). This selection provides a set of powerful models that are implemented regularly in machine learning projects. We demonstrate each method with examples and annotated R code, and discuss best practices for determining sample sizes; comparing model performances; tuning prediction models; preregistering prediction models; and reporting results. Finally, we discuss the value of machine learning methods in maintaining psychology’s status as a predictive science.

scholarly journals Modeling Pan Evaporation Using Gaussian Process Regression K-Nearest Neighbors Random Forest and Support Vector Machines; Comparative Analysis

Atmosphere ◽  
2020 ◽  
Vol 11 (1) ◽  
pp. 66 ◽  
Author(s):  
Sevda Shabani ◽  
Saeed Samadianfard ◽  
Mohammad Taghi Sattari ◽  
Amir Mosavi ◽  
Shahaboddin Shamshirband ◽  
...  
Keyword(s):  
Machine Learning ◽  
Random Forest ◽  
Gaussian Process ◽  
Gaussian Process Regression ◽  
Nearest Neighbors ◽  
Support Vector ◽  
Pan Evaporation ◽  
Learning Methods ◽  
K Nearest Neighbors ◽  
Machine Learning Methods

Evaporation is a very important process; it is one of the most critical factors in agricultural, hydrological, and meteorological studies. Due to the interactions of multiple climatic factors, evaporation is considered as a complex and nonlinear phenomenon to model. Thus, machine learning methods have gained popularity in this realm. In the present study, four machine learning methods of Gaussian Process Regression (GPR), K-Nearest Neighbors (KNN), Random Forest (RF) and Support Vector Regression (SVR) were used to predict the pan evaporation (PE). Meteorological data including PE, temperature (T), relative humidity (RH), wind speed (W), and sunny hours (S) collected from 2011 through 2017. The accuracy of the studied methods was determined using the statistical indices of Root Mean Squared Error (RMSE), correlation coefficient (R) and Mean Absolute Error (MAE). Furthermore, the Taylor charts utilized for evaluating the accuracy of the mentioned models. The results of this study showed that at Gonbad-e Kavus, Gorgan and Bandar Torkman stations, GPR with RMSE of 1.521 mm/day, 1.244 mm/day, and 1.254 mm/day, KNN with RMSE of 1.991 mm/day, 1.775 mm/day, and 1.577 mm/day, RF with RMSE of 1.614 mm/day, 1.337 mm/day, and 1.316 mm/day, and SVR with RMSE of 1.55 mm/day, 1.262 mm/day, and 1.275 mm/day had more appropriate performances in estimating PE values. It was found that GPR for Gonbad-e Kavus Station with input parameters of T, W and S and GPR for Gorgan and Bandar Torkmen stations with input parameters of T, RH, W and S had the most accurate predictions and were proposed for precise estimation of PE. The findings of the current study indicated that the PE values may be accurately estimated with few easily measured meteorological parameters.

scholarly journals Forecasting Rainfed Agricultural Production in Arid and Semi-Arid Lands Using Learning Machine Methods: A Case Study

2021 ◽  
Vol 13 (9) ◽  
pp. 4607
Author(s):  
Shahram Rezapour ◽  
Erfan Jooyandeh ◽  
Mohsen Ramezanzade ◽  
Ali Mostafaeipour ◽  
Mehdi Jahangiri ◽  
...  
Keyword(s):  
Machine Learning ◽  
Remote Sensing ◽  
Remote Sensing Data ◽  
Weather Data ◽  
Support Vector ◽  
Learning Methods ◽  
K Nearest Neighbors ◽  
Sensing Data ◽  
Machine Learning Methods ◽  
Rainfed Farming

With the rising demand for food products and the direct impact of climate change on food production in many parts of the world, recent years have seen growing interest in the subject of food security and the role of rainfed farming in this area. Machine learning methods can be used to predict crop yield based on a combination of remote sensing data and data collected by ground weather stations. This paper argues that forecasting drylands farming yield can be reliable for management purpose under uncertain conditions using machine learning methods and remote sensing data and determines which indicators are most important in predicting the yield of chickpea. In this study, the yield of rainfed chickpea farms in 11 top chickpea producing counties in Kermanshah province, Iran, was predicted using three machine learning methods, namely support vector regression (SVR), random forest (RF), and K-nearest neighbors (KNN). To improve prediction accuracy, for each county, remote sensing data were overlaid by the satellite images of rainfed farms with a suitable slope and altitude for rainfed farming. An integrated database was created by combining weather data, remote sensing data, and chickpea yield statistics. The methods were evaluated using the leave-one-out cross-validation (LOOCV) technique and compared in terms of multiple measures. Given the sensitivity of rainfed chickpea yield to the time of data, the predictions were made in two scenarios: (1) using the averages of the data of all growing months, and (2) using the data of a combination of months. The results showed that RF provides more accurate yield predictions than other methods. The predictions of this method were 7–8% different from the statistics reported by the Statistical Center and the Ministry of Agriculture of Iran. It was found that for pre-harvest prediction of rainfed chickpea yield, using the data of the March–April period (the averages of two months) offers the best result in terms of the correlation coefficient for the relationship between the yield and the predictor indices.

scholarly journals Development and research of algorithms for determining user preferred public transport stops in a geographic information system based on machine learning methods

2020 ◽  
Vol 44 (4) ◽  
pp. 646-652
Author(s):  
A.A. Borodinov
Keyword(s):  
Machine Learning ◽  
Public Transport ◽  
Nearest Neighbors ◽  
Support Vector ◽  
Multi Layer Perceptron ◽  
Calculation Algorithm ◽  
Learning Methods ◽  
K Nearest Neighbors ◽  
Vector Method ◽  
Machine Learning Methods

The paper considers a problem of determining the user preferred stops in a public transport recommender system. The effectiveness of using various machine learning methods to solve this problem in a system of personalized recommendations is compared, including a support vector method, a decision tree, a random forest, AdaBoost, a k-nearest neighbors algorithm, and a multi-layer perceptron. The described traditional methods of machine learning are also compared with the method proposed herein and based on an estimate calculation algorithm. The efficiency and the effectiveness of the proposed method are confirmed in the work.

Identifying Cancer Targets Based on Machine Learning Methods via Chou’s 5-steps Rule and General Pseudo Components

2019 ◽  
Vol 19 (25) ◽  
pp. 2301-2317 ◽  
Author(s):  
Ruirui Liang ◽  
Jiayang Xie ◽  
Chi Zhang ◽  
Mengying Zhang ◽  
Hai Huang ◽  
...  
Keyword(s):  
Machine Learning ◽  
Growth Rate ◽  
Big Data ◽  
Human Genome Project ◽  
Genome Project ◽  
Support Vector ◽  
Successful Implementation ◽  
Learning Methods ◽  
Machine Learning Methods ◽  
Vector Machines

In recent years, the successful implementation of human genome project has made people realize that genetic, environmental and lifestyle factors should be combined together to study cancer due to the complexity and various forms of the disease. The increasing availability and growth rate of ‘big data’ derived from various omics, opens a new window for study and therapy of cancer. In this paper, we will introduce the application of machine learning methods in handling cancer big data including the use of artificial neural networks, support vector machines, ensemble learning and naïve Bayes classifiers.

scholarly journals Integration of transcriptomic data identifies key hallmark genes in hypertrophic cardiomyopathy

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Jing Xu ◽  
Xiangdong Liu ◽  
Qiming Dai
Keyword(s):  
Machine Learning ◽  
Hypertrophic Cardiomyopathy ◽  
Heart Diseases ◽  
Expression Patterns ◽  
Support Vector ◽  
Rna Seq ◽  
Ppi Network ◽  
Learning Methods ◽  
Transcriptomic Data ◽  
Machine Learning Methods

Abstract Background Hypertrophic cardiomyopathy (HCM) represents one of the most common inherited heart diseases. To identify key molecules involved in the development of HCM, gene expression patterns of the heart tissue samples in HCM patients from multiple microarray and RNA-seq platforms were investigated. Methods The significant genes were obtained through the intersection of two gene sets, corresponding to the identified differentially expressed genes (DEGs) within the microarray data and within the RNA-Seq data. Those genes were further ranked using minimum-Redundancy Maximum-Relevance feature selection algorithm. Moreover, the genes were assessed by three different machine learning methods for classification, including support vector machines, random forest and k-Nearest Neighbor. Results Outstanding results were achieved by taking exclusively the top eight genes of the ranking into consideration. Since the eight genes were identified as candidate HCM hallmark genes, the interactions between them and known HCM disease genes were explored through the protein–protein interaction (PPI) network. Most candidate HCM hallmark genes were found to have direct or indirect interactions with known HCM diseases genes in the PPI network, particularly the hub genes JAK2 and GADD45A. Conclusions This study highlights the transcriptomic data integration, in combination with machine learning methods, in providing insight into the key hallmark genes in the genetic etiology of HCM.

scholarly journals Machine Learning Methods Applied to the Prediction of Pseudo-nitzschia spp. Blooms in the Galician Rias Baixas (NW Spain)

2021 ◽  
Vol 10 (4) ◽  
pp. 199
Author(s):  
Francisco M. Bellas Aláez ◽  
Jesus M. Torres Palenzuela ◽  
Evangelos Spyrakos ◽  
Luis González Vilas
Keyword(s):  
Machine Learning ◽  
Performance Metrics ◽  
Prediction Models ◽  
Support Vector ◽  
False Alarms ◽  
Learning Approaches ◽  
Learning Methods ◽  
Machine Learning Methods ◽  
Rías Baixas ◽  
New Algorithms

This work presents new prediction models based on recent developments in machine learning methods, such as Random Forest (RF) and AdaBoost, and compares them with more classical approaches, i.e., support vector machines (SVMs) and neural networks (NNs). The models predict Pseudo-nitzschia spp. blooms in the Galician Rias Baixas. This work builds on a previous study by the authors (doi.org/10.1016/j.pocean.2014.03.003) but uses an extended database (from 2002 to 2012) and new algorithms. Our results show that RF and AdaBoost provide better prediction results compared to SVMs and NNs, as they show improved performance metrics and a better balance between sensitivity and specificity. Classical machine learning approaches show higher sensitivities, but at a cost of lower specificity and higher percentages of false alarms (lower precision). These results seem to indicate a greater adaptation of new algorithms (RF and AdaBoost) to unbalanced datasets. Our models could be operationally implemented to establish a short-term prediction system.

scholarly journals Predicting plaque vulnerability change using intravascular ultrasound + optical coherence tomography image-based fluid–structure interaction models and machine learning methods with patient follow-up data: a feasibility study

2021 ◽  
Vol 20 (1) ◽  
Author(s):  
Xiaoya Guo ◽  
Akiko Maehara ◽  
Mitsuaki Matsumura ◽  
Liang Wang ◽  
Jie Zheng ◽  
...  
Keyword(s):  
Machine Learning ◽  
Coronary Plaque ◽  
Support Vector ◽  
Single Factor ◽  
Plaque Vulnerability ◽  
Learning Methods ◽  
Machine Learning Methods ◽  
Vulnerability Prediction ◽  
Biomechanical Factors

Abstract Background Coronary plaque vulnerability prediction is difficult because plaque vulnerability is non-trivial to quantify, clinically available medical image modality is not enough to quantify thin cap thickness, prediction methods with high accuracies still need to be developed, and gold-standard data to validate vulnerability prediction are often not available. Patient follow-up intravascular ultrasound (IVUS), optical coherence tomography (OCT) and angiography data were acquired to construct 3D fluid–structure interaction (FSI) coronary models and four machine-learning methods were compared to identify optimal method to predict future plaque vulnerability. Methods Baseline and 10-month follow-up in vivo IVUS and OCT coronary plaque data were acquired from two arteries of one patient using IRB approved protocols with informed consent obtained. IVUS and OCT-based FSI models were constructed to obtain plaque wall stress/strain and wall shear stress. Forty-five slices were selected as machine learning sample database for vulnerability prediction study. Thirteen key morphological factors from IVUS and OCT images and biomechanical factors from FSI model were extracted from 45 slices at baseline for analysis. Lipid percentage index (LPI), cap thickness index (CTI) and morphological plaque vulnerability index (MPVI) were quantified to measure plaque vulnerability. Four machine learning methods (least square support vector machine, discriminant analysis, random forest and ensemble learning) were employed to predict the changes of three indices using all combinations of 13 factors. A standard fivefold cross-validation procedure was used to evaluate prediction results. Results For LPI change prediction using support vector machine, wall thickness was the optimal single-factor predictor with area under curve (AUC) 0.883 and the AUC of optimal combinational-factor predictor achieved 0.963. For CTI change prediction using discriminant analysis, minimum cap thickness was the optimal single-factor predictor with AUC 0.818 while optimal combinational-factor predictor achieved an AUC 0.836. Using random forest for predicting MPVI change, minimum cap thickness was the optimal single-factor predictor with AUC 0.785 and the AUC of optimal combinational-factor predictor achieved 0.847. Conclusion This feasibility study demonstrated that machine learning methods could be used to accurately predict plaque vulnerability change based on morphological and biomechanical factors from multi-modality image-based FSI models. Large-scale studies are needed to verify our findings.

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